Trait: vascular dementia

Experimental Factor Ontology (EFO) Information
Identifier EFO_0004718
Description A degenerative vascular disorder affecting the brain. It is caused by the blockage of the blood supply to the brain. It is manifested with decline of memory and cognitive functions. [NCIT: C34525]
Trait categories
Cardiovascular disease
Neurological disorder
Synonyms 4 synonyms
  • Arteriosclerotic Dementias
  • Dementias, Vascular
  • Vascular Dementias
  • vascular dementia
Mapped terms 14 mapped terms
  • DOID:8725
  • ICD10:F01
  • ICD10:F01.5
  • ICD9:290.4
  • MESH:D015140
  • MONDO:0004648
  • MedDRA:10047055
  • MedDRA:10047056
  • MedDRA:10047057
  • MedDRA:10047058
  • MedDRA:10057678
  • NCIT:C34525
  • SCTID:429998004
  • UMLS:C0011269

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS001179
(GBE_HC711)
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Vascular dementia (time-to-event) vascular dementia 7
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001179/ScoringFiles/PGS001179.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM)
Evaluated Score PGS Sample Set ID
(PSS)
Performance Source Trait PGS Effect Sizes
(per SD change)
Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM008585 PGS001179
(GBE_HC711)
PSS004618|
African Ancestry|
6,497 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE vascular dementia AUROC: 0.89609 [0.78011, 1.0] : 0.23133
Incremental AUROC (full-covars): -0.00271
PGS R2 (no covariates): 0.00098
PGS AUROC (no covariates): 0.45314 [0.26337, 0.6429]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008586 PGS001179
(GBE_HC711)
PSS004619|
European Ancestry|
24,905 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE vascular dementia AUROC: 0.86436 [0.80883, 0.91989] : 0.14328
Incremental AUROC (full-covars): 0.00289
PGS R2 (no covariates): 0.00776
PGS AUROC (no covariates): 0.59245 [0.49395, 0.69095]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008587 PGS001179
(GBE_HC711)
PSS004620|
South Asian Ancestry|
7,831 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE vascular dementia AUROC: 0.83842 [0.72824, 0.9486] : 0.14604
Incremental AUROC (full-covars): 0.00843
PGS R2 (no covariates): 0.0135
PGS AUROC (no covariates): 0.61894 [0.47358, 0.76431]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008588 PGS001179
(GBE_HC711)
PSS004621|
European Ancestry|
67,425 individuals
PGP000244 |
Tanigawa Y et al. medRxiv (2021)
|Pre
Reported Trait: TTE vascular dementia AUROC: 0.82562 [0.78593, 0.86531] : 0.10475
Incremental AUROC (full-covars): 0.00707
PGS R2 (no covariates): 0.01123
PGS AUROC (no covariates): 0.61306 [0.55366, 0.67245]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

Evaluated Samples

PGS Sample Set ID
(PSS)
Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS004620
[
  • 16 cases
  • , 7,815 controls
]
South Asian UKB
PSS004621
[
  • 97 cases
  • , 67,328 controls
]
European white British ancestry UKB Testing cohort (heldout set)
PSS004618
[
  • 12 cases
  • , 6,485 controls
]
African unspecified UKB
PSS004619
[
  • 36 cases
  • , 24,869 controls
]
European non-white British ancestry UKB